Abstract
Recent work has highlighted an intimate link between the internal friction of single biopolymers and dynamics on an underlying energy landscape of conformational change. Here, we examine the coarse-grained dynamics of flexible biopolymers by incorporating local internal friction sources into the successful Rouse model of polymer dynamics. Our main result is a closed-form expression of the frequency response function of a Rouse chain with and without internal friction. We find that the regimes in which internal friction and solvent friction dominate are characterized by single-mode dumbbell (|J(ω → ∞)| ∼ ω-1) and Rouse-like behavior (|J(ω → ∞)| ∼ ω-1/2), respectively. A real-space analysis shows these behaviors are due to a frequency-dependent length of chain that can respond to perturbations. By distinguishing dissipation due to internal conformational change with that from the solvent, the RIF model provides a simple and generic basis for probing the structure and dynamics of single biomolecules in stretching experiments.
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